rnaQUAST 1.5.1-foss-2018b-Python-2.7.15

Deprecated: Use of this version of rnaQUAST is deprecated. More information on our Applications Support and Retention Policy.

Developing a novel assembler software clearly requires a quality evaluation tool that is capable to assess and compare various assembly approaches. An example of QUAST evaluation tool and SPAdes genome assembler show that parallel development appears to be beneficial for both tool. However, currently no tool has set a standard in assessing quality of assembled transcripts, which created a need of developing rnaQUAST - a quality evaluation tool for assembled transcripts. rnaQUAST is capable of utilizing reference genome and gene database, and at the same time allows to assemble transcripts de novo using several thrid-party tools, such as BUSCO and GeneMarkS-T.

Accessing rnaQUAST 1.5.1-foss-2018b-Python-2.7.15

To load the module for rnaQUAST 1.5.1-foss-2018b-Python-2.7.15 please use this command on the BEAR systems (BlueBEAR, BEARCloud VMs, and CaStLeS VMs):

module load rnaQUAST/1.5.1-foss-2018b-Python-2.7.15

BEAR Apps Version

2018b

Architectures

EL8-cascadelake — EL8-haswell — Ubuntu20.04-haswell

The listed architectures consist of two part: OS-CPU.

  • BlueBEAR: The OS used on BlueBEAR is represented by EL and there are several different processor (CPU) types available on BlueBEAR. More information about the processor types on BlueBEAR is available on the BlueBEAR Job Submission page.
  • BEAR and CaStLeS Cloud VMs: These VMs can have one of two OSes. Those with access to a BEAR Cloud or CaStLeS VM should check that the listed architectures for an application include the OS of VM being used. The VMs, irrespective of OS, will use the haswell CPU type.

More Information

For more information visit the rnaQUAST website.

Dependencies

This version of rnaQUAST has a direct dependency on: BLAST+/2.8.1-foss-2018b foss/2018b gffutils/0.9-foss-2018b-Python-2.7.15 GMAP-GSNAP/2019-02-15-foss-2018b matplotlib/2.2.3-foss-2018b-Python-2.7.15 Python/2.7.15-foss-2018b

Last modified on 5th June 2019